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CDK2-cyclin A in complex with FragLite 18
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GUC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 Protein at 10 mg/ml. 0.6 to 0.8 M KCl, 0.9 to 1.2 M (NH4)2SO4, and 100 mM HEPES pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.82 56.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.125 α = 90 b = 134.031 β = 90 c = 147.881 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2020-02-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.89842 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.38 147.88 94.9 0.154 0.166 0.062 0.999 11 13.5 56875
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.38 2.45 100 2.048 2.214 0.838 0.593 1.2 13.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.38 99.508 56222 2868 93.966 0.233 0.2324 0.228 0.239 0.2322 38.61
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -2.447 0.838 1.609
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.222 r_dihedral_angle_6_deg 15.818 r_dihedral_angle_3_deg 15.233 r_lrange_it 10.407 r_scangle_it 7.793 r_dihedral_angle_1_deg 6.222 r_mcangle_it 5.925 r_scbond_it 5.351 r_mcbond_it 3.879 r_angle_refined_deg 1.632
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 19.222 r_dihedral_angle_6_deg 15.818 r_dihedral_angle_3_deg 15.233 r_lrange_it 10.407 r_scangle_it 7.793 r_dihedral_angle_1_deg 6.222 r_mcangle_it 5.925 r_scbond_it 5.351 r_mcbond_it 3.879 r_angle_refined_deg 1.632 r_nbtor_refined 0.319 r_symmetry_nbd_refined 0.299 r_nbd_refined 0.224 r_symmetry_xyhbond_nbd_refined 0.195 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.098 r_bond_refined_d 0.008 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8772 Nucleic Acid Atoms Solvent Atoms 308 Heterogen Atoms 108
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing